Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A1 F1 I1 R1
|
315 |
33.5 |
1889570 |
98.7% |
1865005 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,142,898 |
G→A |
A31V (GCA→GTA) |
hybC ← |
hydrogenase 2 large subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,142,898 | 0 | G | A | 97.4%
| 136.0
/ ‑3.6
| 38 | A31V (GCA→GTA) | hybC | hydrogenase 2 large subunit |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (11/26); minor base T (0/1); total (11/27) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.87e-01 |
ACAATCATCCATGCATCGCGCGGATCGCGGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATGCTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCGTAAATGCCCCTCAATACGGGTTACCGGATCAA > NC_000913/3142820‑3142970
|
acaATCATCCATGCATCGCGCGGATCGCGGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACt < 1:588429/81‑1 (MQ=255)
atcatcCATGCATCGCGCGGATCGCGGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTc < 1:588430/81‑1 (MQ=255)
atcatcCATGCATCGCGCGGATCGCGGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTc < 2:588431/81‑1 (MQ=255)
atcCATGCATCGCGCGGATCGCGGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGa < 1:588433/80‑1 (MQ=255)
atcCATGCATCGCGCGGATCGCGGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGa < 2:588432/80‑1 (MQ=255)
aTGCATCGCGCGGATCGCGGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAacga < 2:588434/81‑1 (MQ=255)
gCATCGCGCGGATCGCGGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAacgacg > 1:588496/1‑81 (MQ=255)
aTCGCGCGGATCGCGGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGcc < 1:588435/81‑1 (MQ=255)
aTCGCGCGGATCGCGGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGc > 2:588487/1‑80 (MQ=255)
gcgcgGATCGCGGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCAtt < 2:588437/81‑1 (MQ=255)
gcgcgGATCGCGGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCAtt < 2:588436/81‑1 (MQ=255)
cgGATCGCGGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTc < 2:588438/81‑1 (MQ=255)
cgGATCGCGGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTc < 1:588440/81‑1 (MQ=255)
cgGATCGCGGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTc < 1:588439/81‑1 (MQ=255)
aTCGCGGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGAt < 1:588441/81‑1 (MQ=255)
cgGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCg < 2:588442/81‑1 (MQ=255)
ggTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATTCTTTCGAAACGACGCCATTTTCGATTTCGc < 1:588443/81‑1 (MQ=255)
gTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGc > 1:588507/1‑80 (MQ=255)
ttCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATc > 2:588489/1‑80 (MQ=255)
tCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCg < 1:588444/80‑1 (MQ=255)
tCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGa > 1:588493/1‑81 (MQ=255)
aTCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCg > 1:588494/1‑80 (MQ=255)
aTCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCg > 1:588513/1‑80 (MQ=255)
ttCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCGt < 2:588447/76‑1 (MQ=255)
ttCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCGt < 1:588445/76‑1 (MQ=255)
ttCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCGTaaa < 2:588446/79‑1 (MQ=255)
ttCCATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCGTa < 2:588448/77‑1 (MQ=255)
ccATGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCGTAAATGcc > 2:588501/1‑81 (MQ=255)
aTGCCGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCGTAAATGcccc < 1:588449/81‑1 (MQ=255)
ccGCGCCACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCGTAAATGCCCCTc < 2:588450/80‑1 (MQ=255)
ccACATGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCGTAAATGCCCCTCAATACg < 2:588451/81‑1 (MQ=255)
caTGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCGTAAATGCCCCTCAATACGGGt < 1:588452/81‑1 (MQ=255)
caTGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCGTAAATGCCCCTCAATACGGGt < 1:588453/81‑1 (MQ=255)
aTGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCGTAAATGCCCCTCAATACGGGtt < 1:588454/81‑1 (MQ=255)
tGGTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCGTAAATGCCCCTCAATACGGGTTa < 2:588455/81‑1 (MQ=255)
gTACCGGAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCGTAAATGCCCCTCAATACGGGTTAcc > 2:588511/1‑81 (MQ=255)
ggAAGCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCGTAAATGCCCCTCAATACGGGTTACCGGAt > 1:588504/1‑80 (MQ=255)
gCCCATACTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCGTAAATGCCCCTCAATACGGGTTACCGGATCaa > 1:588456/1‑79 (MQ=255)
|
ACAATCATCCATGCATCGCGCGGATCGCGGTTTTTCACGATCTCTTCCATGCCGCGCCACATGGTACCGGAAGCCCATGCTTTCGAAACGACGCCATTTTCGATTTCGCAATCGATGCGTAAATGCCCCTCAATACGGGTTACCGGATCAA > NC_000913/3142820‑3142970
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
